BLASTP 2.2.26 [Sep-21-2011]


Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, 
Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), 
"Gapped BLAST and PSI-BLAST: a new generation of protein database search
programs",  Nucleic Acids Res. 25:3389-3402.


Reference for compositional score matrix adjustment: Altschul, Stephen F., 
John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis,
Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches
using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109.

Query= psy168
         (130 letters)

Database: pdbaa 
           62,578 sequences; 14,973,337 total letters

Searching..................................................done



>pdb|4GBY|A Chain A, The Structure Of The Mfs (Major Facilitator Superfamily)
           Proton:xylose Symporter Xyle Bound To D-Xylose
 pdb|4GBZ|A Chain A, The Structure Of The Mfs (Major Facilitator Superfamily)
           Proton:xylose Symporter Xyle Bound To D-Glucose
 pdb|4GC0|A Chain A, The Structure Of The Mfs (Major Facilitator Superfamily)
           Proton:xylose Symporter Xyle Bound To
           6-Bromo-6-Deoxy-D-Glucose
          Length = 491

 Score = 42.7 bits (99), Expect = 6e-05,   Method: Compositional matrix adjust.
 Identities = 34/125 (27%), Positives = 55/125 (44%), Gaps = 12/125 (9%)

Query: 7   IMLGAGMGFCEGPIMSYLGEVCEPRIRGSLTLLSGVSGNGGALGIFFLNAI------TDW 60
           I+ G G+G        Y+ E+    IRG L   +  +   G L ++ +N          W
Sbjct: 134 IIGGIGVGLASMLSPMYIAELAPAHIRGKLVSFNQFAIIFGQLLVYCVNYFIARSGDASW 193

Query: 61  RTTT-----LISSVVPILAFAMILF-LPESPTWLIYKGRMVDAEKSLRWLRGWSKKDKVM 114
             T        S  +P L F M+L+ +PESP WL+ +G+   AE  LR + G +   + +
Sbjct: 194 LNTDGWRYMFASECIPALLFLMLLYTVPESPRWLMSRGKQEQAEGILRKIMGNTLATQAV 253

Query: 115 VEFEQ 119
            E + 
Sbjct: 254 QEIKH 258


>pdb|1I9Y|A Chain A, Crystal Structure Of Inositol Polyphosphate 5-Phosphatase
           Domain (Ipp5c) Of Spsynaptojanin
 pdb|1I9Z|A Chain A, Crystal Structure Of Inositol Polyphosphate 5-Phosphatase
           Domain (Ipp5c) Of Spsynaptojanin In Complex With
           Inositol (1,4)-Bisphosphate And Calcium Ion
          Length = 347

 Score = 26.9 bits (58), Expect = 3.4,   Method: Compositional matrix adjust.
 Identities = 16/39 (41%), Positives = 20/39 (51%), Gaps = 5/39 (12%)

Query: 20  IMSYLGEVCEPRIRG-----SLTLLSGVSGNGGALGIFF 53
           +M +  E C P I+        T L GVSGN GA+ I F
Sbjct: 115 LMIFCKESCLPSIKNVEGTVKKTGLGGVSGNKGAVAIRF 153


>pdb|4F4C|A Chain A, The Crystal Structure Of The Multi-Drug Transporter
          Length = 1321

 Score = 26.2 bits (56), Expect = 4.8,   Method: Composition-based stats.
 Identities = 16/43 (37%), Positives = 24/43 (55%), Gaps = 7/43 (16%)

Query: 37  TLLSGVSGNGGALGIFFLNAITDWRTTTLISSVVPILAFAMIL 79
           TL+S V+G G  L  F+      W+   LI +++PI+AF   L
Sbjct: 880 TLVSMVAGIG--LAFFY-----GWQMALLIIAILPIVAFGQYL 915


>pdb|3LQ1|A Chain A, Crystal Structure Of
           2-Succinyl-6-Hydroxy-2,4-Cyclohexadiene 1-Carboxylic
           Acid Synthase2-Oxoglutarate Decarboxylase From Listeria
           Monocytogenes Str. 4b F2365
 pdb|3LQ1|B Chain B, Crystal Structure Of
           2-Succinyl-6-Hydroxy-2,4-Cyclohexadiene 1-Carboxylic
           Acid Synthase2-Oxoglutarate Decarboxylase From Listeria
           Monocytogenes Str. 4b F2365
          Length = 578

 Score = 26.2 bits (56), Expect = 4.9,   Method: Composition-based stats.
 Identities = 15/46 (32%), Positives = 20/46 (43%)

Query: 71  PILAFAMILFLPESPTWLIYKGRMVDAEKSLRWLRGWSKKDKVMVE 116
           PI A   ++   E     I +  M D  K   WL GW+  +KV  E
Sbjct: 329 PIKAVTDMIHCDERFLLDIMQQNMPDDAKDAAWLNGWTSYNKVARE 374


  Database: pdbaa
    Posted date:  Mar 3, 2013 10:34 PM
  Number of letters in database: 14,973,337
  Number of sequences in database:  62,578
  
Lambda     K      H
   0.326    0.141    0.457 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,873,072
Number of Sequences: 62578
Number of extensions: 145079
Number of successful extensions: 311
Number of sequences better than 100.0: 5
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 307
Number of HSP's gapped (non-prelim): 5
length of query: 130
length of database: 14,973,337
effective HSP length: 88
effective length of query: 42
effective length of database: 9,466,473
effective search space: 397591866
effective search space used: 397591866
T: 11
A: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 45 (21.9 bits)